SUPERFAMILY 1.75 HMM library and genome assignments server


Bromodomain superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   Bromodomain-like [ 47363] (15)
Superfamily:   Bromodomain [ 47370]
Families:   Bromodomain [ 47371] (4)


Superfamily statistics
Genomes (444) Uniprot 2013_05 PDB chains (SCOP 1.75)
Domains 12,167 10,212 8
Proteins 9,487 7,897 7


Functional annotation
General category Regulation
Detailed category DNA-binding

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) cellular component organization or biogenesis 0 Least Informative Direct
Biological Process (BP) cellular macromolecule metabolic process 0 Least Informative Direct
Biological Process (BP) regulation of metabolic process 3.746e-15 Least Informative Direct
Biological Process (BP) multicellular organismal process 6.894e-10 Least Informative Direct
Biological Process (BP) developmental process 2.313e-09 Least Informative Direct
Biological Process (BP) single-organism cellular process 1.153e-07 Least Informative Direct
Biological Process (BP) protein metabolic process 1.867e-06 Least Informative Direct
Biological Process (BP) heterocycle metabolic process 2.289e-05 Least Informative Direct
Biological Process (BP) cellular aromatic compound metabolic process 4.913e-05 Least Informative Direct
Biological Process (BP) regulation of cellular process 0.0001977 Least Informative Direct
Biological Process (BP) organic cyclic compound metabolic process 0.0003009 Least Informative Direct
Biological Process (BP) nitrogen compound metabolic process 0.0004443 Least Informative Direct
Biological Process (BP) single-organism metabolic process 1 Least Informative Inherited
Biological Process (BP) biosynthetic process 1 Least Informative Inherited
Biological Process (BP) organelle organization 0 Moderately Informative Direct
Biological Process (BP) regulation of nucleobase-containing compound metabolic process 0 Moderately Informative Direct
Biological Process (BP) cellular protein modification process 0 Moderately Informative Direct
Biological Process (BP) regulation of cellular biosynthetic process 7.325e-14 Moderately Informative Direct
Biological Process (BP) regulation of macromolecule biosynthetic process 7.982e-12 Moderately Informative Direct
Biological Process (BP) regulation of gene expression 9.977e-09 Moderately Informative Direct
Biological Process (BP) positive regulation of metabolic process 5.117e-06 Moderately Informative Direct
Biological Process (BP) negative regulation of cellular process 2.416e-05 Moderately Informative Direct
Biological Process (BP) cell differentiation 0.0001757 Moderately Informative Direct
Biological Process (BP) phosphate-containing compound metabolic process 0.0002914 Moderately Informative Direct
Biological Process (BP) regulation of phosphate metabolic process 0.1665 Moderately Informative Inherited
Biological Process (BP) regulation of protein metabolic process 1 Moderately Informative Inherited
Biological Process (BP) negative regulation of metabolic process 0.01238 Moderately Informative Inherited
Biological Process (BP) regulation of signal transduction 0.007598 Moderately Informative Inherited
Biological Process (BP) cellular component biogenesis 1 Moderately Informative Inherited
Biological Process (BP) macromolecular complex subunit organization 0.0463 Moderately Informative Inherited
Biological Process (BP) single-organism developmental process 0.003037 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 1 Moderately Informative Inherited
Biological Process (BP) positive regulation of cellular process 0.01766 Moderately Informative Inherited
Biological Process (BP) positive regulation of molecular function 0.005506 Moderately Informative Inherited
Biological Process (BP) carbohydrate derivative metabolic process 0.7796 Moderately Informative Inherited
Biological Process (BP) immune system process 0.603 Moderately Informative Inherited
Biological Process (BP) homeostatic process 0.2153 Moderately Informative Inherited
Biological Process (BP) cellular nitrogen compound biosynthetic process 0.03372 Moderately Informative Inherited
Biological Process (BP) aromatic compound biosynthetic process 0.04197 Moderately Informative Inherited
Biological Process (BP) heterocycle biosynthetic process 0.04629 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound biosynthetic process 0.1292 Moderately Informative Inherited
Biological Process (BP) RNA metabolic process 1 Moderately Informative Inherited
Biological Process (BP) organ development 0.6072 Moderately Informative Inherited
Biological Process (BP) nervous system development 0.5193 Moderately Informative Inherited
Biological Process (BP) nucleobase-containing small molecule metabolic process 0.3767 Moderately Informative Inherited
Biological Process (BP) organic cyclic compound catabolic process 0.06492 Moderately Informative Inherited
Biological Process (BP) organophosphate metabolic process 0.6678 Moderately Informative Inherited
Biological Process (BP) cellular catabolic process 1 Moderately Informative Inherited
Biological Process (BP) reproduction 0.1031 Moderately Informative Inherited
Biological Process (BP) cellular macromolecule biosynthetic process 0.8042 Moderately Informative Inherited
Biological Process (BP) gene expression 1 Moderately Informative Inherited
Biological Process (BP) organonitrogen compound catabolic process 0.002783 Moderately Informative Inherited
Biological Process (BP) tissue development 0.8648 Moderately Informative Inherited
Biological Process (BP) regulation of cellular component organization 0.7358 Moderately Informative Inherited
Biological Process (BP) chromosome organization 0 Informative Direct
Biological Process (BP) peptidyl-amino acid modification 0 Informative Direct
Biological Process (BP) transcription, DNA-dependent 7.365e-11 Informative Direct
Biological Process (BP) DNA metabolic process 3.093e-09 Informative Direct
Biological Process (BP) nucleoside monophosphate metabolic process 1.622e-07 Informative Direct
Biological Process (BP) cardiovascular system development 3.608e-06 Informative Direct
Biological Process (BP) glycosyl compound catabolic process 3.747e-06 Informative Direct
Biological Process (BP) nucleoside triphosphate metabolic process 5.093e-06 Informative Direct
Biological Process (BP) muscle structure development 5.538e-06 Informative Direct
Biological Process (BP) growth 6.269e-06 Informative Direct
Biological Process (BP) organophosphate catabolic process 1.214e-05 Informative Direct
Biological Process (BP) purine ribonucleoside metabolic process 1.93e-05 Informative Direct
Biological Process (BP) positive regulation of nitrogen compound metabolic process 3.491e-05 Informative Direct
Biological Process (BP) cellular macromolecular complex assembly 3.54e-05 Informative Direct
Biological Process (BP) positive regulation of gene expression 3.985e-05 Informative Direct
Biological Process (BP) carbohydrate derivative catabolic process 4.279e-05 Informative Direct
Biological Process (BP) purine ribonucleotide metabolic process 4.347e-05 Informative Direct
Biological Process (BP) positive regulation of macromolecule biosynthetic process 0.0001032 Informative Direct
Biological Process (BP) embryo development ending in birth or egg hatching 0.0001303 Informative Direct
Biological Process (BP) embryonic organ development 0.0007712 Informative Direct
Biological Process (BP) positive regulation of cellular biosynthetic process 0.0009272 Informative Direct
Biological Process (BP) regulation of protein phosphorylation 1 Informative Inherited
Biological Process (BP) negative regulation of gene expression 0.0275 Informative Inherited
Biological Process (BP) negative regulation of nitrogen compound metabolic process 0.0145 Informative Inherited
Biological Process (BP) negative regulation of biosynthetic process 0.1035 Informative Inherited
Biological Process (BP) regulation of response to external stimulus 0.005201 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.4944 Informative Inherited
Biological Process (BP) cell cycle process 0.0306 Informative Inherited
Biological Process (BP) cellular process involved in reproduction 0.08162 Informative Inherited
Biological Process (BP) cellular component morphogenesis 1 Informative Inherited
Biological Process (BP) regulation of transcription from RNA polymerase II promoter 0.5451 Informative Inherited
Biological Process (BP) regulation of cellular component biogenesis 0.2234 Informative Inherited
Biological Process (BP) central nervous system development 0.8199 Informative Inherited
Biological Process (BP) hematopoietic or lymphoid organ development 0.1343 Informative Inherited
Biological Process (BP) cell projection organization 0.2369 Informative Inherited
Biological Process (BP) generation of neurons 0.9276 Informative Inherited
Biological Process (BP) tissue morphogenesis 0.05789 Informative Inherited
Biological Process (BP) embryonic morphogenesis 0.1288 Informative Inherited
Biological Process (BP) nucleobase-containing compound catabolic process 0.2543 Informative Inherited
Biological Process (BP) regulation of cell cycle 0.1857 Informative Inherited
Biological Process (BP) sexual reproduction 0.001387 Informative Inherited
Biological Process (BP) single organism reproductive process 0.05554 Informative Inherited
Biological Process (BP) multicellular organismal reproductive process 0.1424 Informative Inherited
Biological Process (BP) epithelium development 0.5805 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.08529 Informative Inherited
Biological Process (BP) peptidyl-lysine modification 0 Highly Informative Direct
Biological Process (BP) chromatin assembly 0 Highly Informative Direct
Biological Process (BP) histone modification 0 Highly Informative Direct
Biological Process (BP) internal protein amino acid acetylation 0 Highly Informative Direct
Biological Process (BP) placenta development 1.773e-14 Highly Informative Direct
Biological Process (BP) protein-DNA complex assembly 9.884e-13 Highly Informative Direct
Biological Process (BP) regulation of binding 7.752e-10 Highly Informative Direct
Biological Process (BP) nucleoside monophosphate catabolic process 1.082e-08 Highly Informative Direct
Biological Process (BP) ATP metabolic process 2.048e-08 Highly Informative Direct
Biological Process (BP) purine ribonucleoside triphosphate catabolic process 1.007e-06 Highly Informative Direct
Biological Process (BP) purine ribonucleoside catabolic process 1.871e-06 Highly Informative Direct
Biological Process (BP) purine ribonucleotide catabolic process 2.285e-06 Highly Informative Direct
Biological Process (BP) erythrocyte differentiation 1.434e-05 Highly Informative Direct
Biological Process (BP) tube formation 2.253e-05 Highly Informative Direct
Biological Process (BP) negative regulation of cell proliferation 4.486e-05 Highly Informative Direct
Biological Process (BP) neural tube development 4.77e-05 Highly Informative Direct
Biological Process (BP) gene silencing 6.542e-05 Highly Informative Direct
Biological Process (BP) cell proliferation 0.0001861 Highly Informative Direct
Biological Process (BP) protein deacylation 0.0002214 Highly Informative Direct
Biological Process (BP) chromosome segregation 0.0002229 Highly Informative Direct
Biological Process (BP) pattern specification process 0.0004261 Highly Informative Direct
Biological Process (BP) morphogenesis of embryonic epithelium 0.0005534 Highly Informative Direct
Biological Process (BP) spermatogenesis 0.0006378 Highly Informative Direct
Biological Process (BP) regulation of gene expression, epigenetic 0.007856 Highly Informative Inherited
Biological Process (BP) negative regulation of transcription, DNA-dependent 0.1401 Highly Informative Inherited
Biological Process (BP) regulation of response to nutrient levels 1 Highly Informative Inherited
Biological Process (BP) positive regulation of transcription, DNA-dependent 0.001933 Highly Informative Inherited
Biological Process (BP) neuron projection development 0.1618 Highly Informative Inherited
Biological Process (BP) cell part morphogenesis 0.2725 Highly Informative Inherited
Biological Process (BP) cell morphogenesis involved in differentiation 0.395 Highly Informative Inherited
Biological Process (BP) DNA modification 0.01094 Highly Informative Inherited
Biological Process (BP) protein methylation 0.4342 Highly Informative Inherited
Biological Process (BP) cellular component disassembly 0.001197 Highly Informative Inherited
Biological Process (BP) regulation of DNA metabolic process 0.3324 Highly Informative Inherited
Biological Process (BP) meiosis 0.007482 Highly Informative Inherited
Biological Process (BP) epithelial tube morphogenesis 0.03678 Highly Informative Inherited
Biological Process (BP) developmental growth 0.005811 Highly Informative Inherited
Molecular Function (MF) binding 0 Least Informative Direct
Molecular Function (MF) hydrolase activity 1 Least Informative Inherited
Molecular Function (MF) nucleic acid binding 7.922e-16 Moderately Informative Direct
Molecular Function (MF) transferase activity, transferring phosphorus-containing groups 1 Moderately Informative Inherited
Molecular Function (MF) chromatin binding 0 Informative Direct
Molecular Function (MF) transferase activity, transferring acyl groups 0 Informative Direct
Molecular Function (MF) DNA binding 8.263e-08 Informative Direct
Molecular Function (MF) nucleoside-triphosphatase activity 0.0003002 Informative Direct
Molecular Function (MF) phosphotransferase activity, alcohol group as acceptor 0.09314 Informative Inherited
Molecular Function (MF) kinase activity 0.1724 Informative Inherited
Molecular Function (MF) receptor binding 0.5111 Informative Inherited
Molecular Function (MF) acetyltransferase activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding transcription factor activity 0 Highly Informative Direct
Molecular Function (MF) transcription factor binding 8.206e-15 Highly Informative Direct
Molecular Function (MF) transcription regulatory region DNA binding 4.643e-09 Highly Informative Direct
Molecular Function (MF) protein kinase activity 0.01238 Highly Informative Inherited
Cellular Component (CC) intracellular organelle part 0 Least Informative Direct
Cellular Component (CC) intracellular non-membrane-bounded organelle 1.787e-09 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 1.802e-09 Least Informative Direct
Cellular Component (CC) protein complex 5.874e-09 Least Informative Direct
Cellular Component (CC) nuclear part 0 Moderately Informative Direct
Cellular Component (CC) intracellular organelle lumen 3.654e-09 Moderately Informative Direct
Cellular Component (CC) cytoskeleton 1 Moderately Informative Inherited
Cellular Component (CC) chromosome 0 Informative Direct
Cellular Component (CC) microtubule cytoskeleton 0.3521 Informative Inherited
Cellular Component (CC) nuclear DNA-directed RNA polymerase complex 0.6129 Informative Inherited
Cellular Component (CC) nucleoplasm part 0.1647 Informative Inherited
Cellular Component (CC) kinetochore 5.537e-11 Highly Informative Direct
Cellular Component (CC) transcription elongation factor complex 6.649e-07 Highly Informative Direct
Cellular Component (CC) nuclear chromosome part 8.56e-06 Highly Informative Direct
Cellular Component (CC) spindle 0.5836 Highly Informative Inherited
Cellular Component (CC) chromatin 0.2392 Highly Informative Inherited
Cellular Component (CC) transcription factor complex 0.2367 Highly Informative Inherited

Document: GO annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEO levelAnnotation (direct or inherited)
Enzyme Commission (EC)Transferring one-carbon groups0.7336Least InformativeInherited
Enzyme Commission (EC)Transferring groups other than amino-acyl groups0Moderately InformativeDirect
Enzyme Commission (EC)Methyltransferases0.01673Moderately InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0InformativeDirect
Enzyme Commission (EC)Histone-lysine N-methyltransferase6.826e-11InformativeDirect

Document: EC annotation of SCOP domains

Disease Ontology (DO)

(show details)
DO termFDR (all)SDDO levelAnnotation (direct or inherited)
Disease Ontology (DO)viral infectious disease0.5203InformativeInherited
Disease Ontology (DO)progressive multifocal leukoencephalopathy0.000576Highly InformativeDirect

Document: DO annotation of SCOP domains

Human Phenotype (HP)

(show details)
HP termFDR (all)SDHP levelAnnotation (direct or inherited)
Phenotypic Abnormality (PA)Abnormality of head and neck0.1552Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the skeletal system0.1558Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of nervous system physiology0.5879Least InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the lower limb0.01691Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hand0.05071Moderately InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the digits0.1723Moderately InformativeInherited
Phenotypic Abnormality (PA)Neurodevelopmental abnormality0.2374Moderately InformativeInherited
Phenotypic Abnormality (PA)Short digit0.0008789InformativeDirect
Phenotypic Abnormality (PA)Abnormality of phalanx of finger0.00422InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eyelid0.01796InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the hair0.02235InformativeInherited
Phenotypic Abnormality (PA)Abnormality of toe0.08842InformativeInherited
Phenotypic Abnormality (PA)Neurodevelopmental delay0.2383InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the eyelashes1.445e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Short phalanx of finger2.197e-05Highly InformativeDirect
Phenotypic Abnormality (PA)Delayed speech and language development0.0006045Highly InformativeDirect
Phenotypic Abnormality (PA)Hypertrichosis0.0009833Highly InformativeDirect
Phenotypic Abnormality (PA)Clubbing0.001486Highly InformativeInherited
Phenotypic Abnormality (PA)Abnormality of the phalanges of the toes0.01214Highly InformativeInherited

Document: HP annotation of SCOP domains

Mouse Phenotype (MP)

(show details)
MP termFDR (all)SDMP levelAnnotation (direct or inherited)
Mammalian Phenotype (MP)nervous system phenotype0.5427Least InformativeInherited
Mammalian Phenotype (MP)abnormal nervous system development0.009295Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal skeleton morphology0.1389Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal craniofacial morphology1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal embryogenesis/ development1Moderately InformativeInherited
Mammalian Phenotype (MP)abnormal cranium morphology0.1655InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube morphology/development0.1945InformativeInherited
Mammalian Phenotype (MP)abnormal neural tube closure0.0001205Highly InformativeDirect

Document: MP annotation of SCOP domains

Worm Phenotype (WP)

(show details)
WP termFDR (all)SDWP levelAnnotation (direct or inherited)
Worm Phenotype (WP)organism environmental stimulus response variant0.007523Least InformativeInherited
Worm Phenotype (WP)growth variant0.733Least InformativeInherited
Worm Phenotype (WP)organ system development variant1.098e-06Moderately InformativeDirect
Worm Phenotype (WP)locomotion variant0.0004989Moderately InformativeDirect
Worm Phenotype (WP)VPC competence variant1.002e-06InformativeDirect
Worm Phenotype (WP)organism stress response variant2.911e-06InformativeDirect
Worm Phenotype (WP)sensillum morphology variant6.808e-06InformativeDirect
Worm Phenotype (WP)sick0.0009244InformativeDirect
Worm Phenotype (WP)vulva development variant0.02239InformativeInherited
Worm Phenotype (WP)organism UV hypersensitive8.96e-10Highly InformativeDirect

Document: WP annotation of SCOP domains

Yeast Phenotype (YP)

(show details)
YP termFDR (all)SDYP levelAnnotation (direct or inherited)
Yeast Phenotype (YP)resistance to chemicals0Least InformativeDirect
Yeast Phenotype (YP)morphology0.003095Moderately InformativeInherited
Yeast Phenotype (YP)chromosome/plasmid maintenance2.546e-05InformativeDirect
Yeast Phenotype (YP)lifespan0.217InformativeInherited
Yeast Phenotype (YP)ionic stress resistance0.0005688Highly InformativeDirect
Yeast Phenotype (YP)chronological lifespan0.0006686Highly InformativeDirect

Document: YP annotation of SCOP domains

Fly Phenotype (FP)

(show details)
FP termFDR (all)SDFP levelAnnotation (direct or inherited)
Fly Phenotype (FP)modifier of variegation3.685e-05InformativeDirect

Document: FP annotation of SCOP domains

Fly Anatomy (FA)

(show details)
FA termFDR (all)SDFA levelAnnotation (direct or inherited)
Fly Anatomy (FA)organ system0Least InformativeDirect
Fly Anatomy (FA)organ system subdivision0Least InformativeDirect
Fly Anatomy (FA)anterior-posterior subdivision of organism1Least InformativeInherited

Document: FA annotation of SCOP domains

Xenopus Anatomy (XA)

(show details)
XA termFDR (all)SDXA levelAnnotation (direct or inherited)
Xenopus ANatomical entity (XAN)genital system0Least InformativeDirect
Xenopus ANatomical entity (XAN)portion of tissue0Least InformativeDirect
Xenopus ANatomical entity (XAN)gonad0Least InformativeDirect
Xenopus ANatomical entity (XAN)embryo0.00018Least InformativeDirect

Document: XA annotation of SCOP domains

Arabidopsis Plant Ontology (AP)

(show details) Document: AP annotation of SCOP domains

Enzyme Commission (EC)

(show details)
EC termFDR (all)SDEC levelAnnotation (direct or inherited)
Enzyme Commission (EC)Hydrolases0.8359Least InformativeInherited
Enzyme Commission (EC)Transferring phosphorous-containing groups1Least InformativeInherited
Enzyme Commission (EC)Acyltransferases5.221e-12Moderately InformativeDirect
Enzyme Commission (EC)Protein-serine/threonine kinases0.001407Moderately InformativeInherited
Enzyme Commission (EC)Acting on acid anhydrides0.007405Moderately InformativeInherited
Enzyme Commission (EC)Transferring one-carbon groups0.739Moderately InformativeInherited
Enzyme Commission (EC)Histone-lysine N-methyltransferase6.098e-11InformativeDirect
Enzyme Commission (EC)Protein-tyrosine kinases2.839e-07InformativeDirect
Enzyme Commission (EC)Non-specific serine/threonine protein kinase0.0001736InformativeDirect
Enzyme Commission (EC)In phosphorous-containing anhydrides0.04148InformativeInherited
Enzyme Commission (EC)Histone acetyltransferase0Highly InformativeDirect
Enzyme Commission (EC)Non-specific protein-tyrosine kinase2.688e-09Highly InformativeDirect

Document: EC annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTranscription regulation6.201e-10Moderately InformativeDirect
Biological processCell cycle4.336e-05Moderately InformativeDirect
Biological processHost-virus interaction0.000127Moderately InformativeDirect
Biological processDifferentiation0.0001445Moderately InformativeDirect
Biological processMeiosis9.936e-08InformativeDirect
Biological processNeurogenesis2.232e-06InformativeDirect
Biological processSpermatogenesis1.181e-05Highly InformativeDirect
Cellular componentNucleus0Least InformativeDirect
Cellular componentChromosome6.477e-07InformativeDirect
Coding sequence diversityAlternative splicing5.754e-06Least InformativeDirect
Coding sequence diversityChromosomal rearrangement1.004e-07InformativeDirect
DiseaseTumor suppressor9.42e-06Moderately InformativeDirect
DomainRepeat0.0001303Least InformativeDirect
DomainCoiled coil0Moderately InformativeDirect
DomainZinc-finger1.062e-09Moderately InformativeDirect
DomainBromodomain0Highly InformativeDirect
Molecular functionZinc8.068e-14Least InformativeDirect
Molecular functionDNA-binding4.738e-08Least InformativeDirect
Post-translational modificationTransferase0.6228Least InformativeInherited
Post-translational modificationHydrolase1Least InformativeInherited
Post-translational modificationActivator0Moderately InformativeDirect
Post-translational modificationRepressor4.61e-10Moderately InformativeDirect
Post-translational modificationChromatin regulator0InformativeDirect
Post-translational modificationHelicase1.787e-07InformativeDirect
Post-translational modificationAcyltransferase2.756e-05InformativeDirect
Post-translational modificationAcetylation0Least InformativeDirect
Post-translational modificationPhosphoprotein0Least InformativeDirect
Post-translational modificationUbl conjugation6.2e-06Moderately InformativeDirect
Post-translational modificationIsopeptide bond8.273e-06Moderately InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR001487 SSF47370 Protein matches
Abstract Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins [PubMed1350857]. Bromodomains can interact with acetylated lysine [PubMed9175470]. In some proteins, the classical bromodomain has diverged to such an extent that parts of the region are either missing or contain an insertion (e.g., mammalian protein HRX, Caenorhabditis elegans hypothetical protein ZK783.4, yeast protein YTA7). The bromodomain may occur as a single copy, or in duplicate.

The precise function of the domain is unclear, but it may be involved in protein-protein interactions and may play a role in assembly or activity of multi-component complexes involved in transcriptional activation [PubMed7580139].


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 6 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Bromodomain domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 6 hidden Markov models representing the Bromodomain superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · Enzyme Commission (EC) · Disease Ontology (DO) · Human Phenotype (HP) · Mouse Phenotype (MP) · Worm Phenotype (WP) · Yeast Phenotype (YP) · Fly Phenotype (FP) · Fly Anatomy (FA) · Xenopus Anatomy (XA) · Arabidopsis Plant Ontology (AP) · Enzyme Commission (EC) · UniProtKB KeyWords (KW) · Internal database links ]